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We can reconstruct the following family tree of Humphrys of Glenstal.
[Deed, 1807]
shows John of Glenstal as father of John of Glenstal
who is setting up Patrick.
[Deed, 1756]
shows John son of John of Glenstal.
These must be the same people.
[Deed, 1817]
shows the John who set up Patrick in 1807
is the same as John who got a lease of Glenstal in 1782.
[Deed, 1802]
shows the 1782 John
is the same as John who separated from his wife Ellen.
[Deed, 1797]
shows the 1782 John
is the same as John who set up his nephew Simon, son of David.
So the family tree is as follows:

John Humphrys,
born est c.1750,
farmer at
Glenstal, Co.Limerick,
gained a long-term lease of Glenstal from the landlord Hyde in 1782.

This younger
John Humphrys may be our ancestor:
John Humphrys, "Cracked Jack"
held his land at Glenstal ultimately under a lease gained in 1782 by this younger John.
It is almost certain that Cracked Jack's wife is a close relation of this John (may be his daughter).
This John may be father of
Cracked Jack's wife
and grandfather of
James Humphrys, "The Squire".
Exact relationship not proven.

David Humphrys,
must be David Humphrys,
of Murroe, farmer, who
witnessed his son's marriage settlement
[Deed, 1797],
had issue:

Simon Humphrys,
of Murroe,
listed as son of David and nephew of John,
listed as "gent" and "farmer".
He mar 1797 to Margaret Dwyer.
She was dau of Anthony Dwyer, of "Cakifeild", Co.Clare
(unidentified, maybe misread for Cornfield, Kilchreest par, Co.Clare).
Marriage settlement in
[Deed, 1797].
Refers to a marriage "then intended" between Simon and Margaret.
His uncle John
sets up an annuity for Margaret out of his lands at Glenstal
in case she should survive Simon.
[Deed, 1797]
shows Simon then in possession of lands of "Bohergare"
(though Humphrys are later gone from Bohergar)
and "Killane"
(unidentified, perhaps Kilbane, Kilmurry par, Co.Limerick).
He
is party to his uncle John's deed of separation
[Deed, 1802].
"Simon Humphreys" is mentioned in the Spring Assizes of Owneybeg, 1808.
Think reference "L.79".
He
witnessed
[Deed, 1809].
His signature is on the memorial.
Simon Humphrys, of Murroe,
is party to
[Deed, 1817]
about the lands of Glenstal after the death of his uncle
John Humphrys of Glenstal.

Nephews of John Humphrys:

Richard Humphrys,
of Murroe,
one of the lives in
[Deed, 1782],
listed as nephew of John.

John Humphrys,
of "Gurteenaskagh"
(must be Gorteennaskagh, Caherconlish par, Co.Limerick),
one of the lives in
[Deed, 1782],
listed as nephew of John.

Patrick of Glenstal
is probably son or nephew of
John Humphrys of Glenstal,
who set him up with land at marriage.
The following items seem to reconstruct a family,
with Patrick marrying Margaret and having son David,
and Margaret being a widow in old age.

Patrick Humphrys,
of Glenstal, farmer.
He mar 1807
to Margaret Ryan.
Marriage settlement in
[Deed, 1807].
He was granted land at Glenstal by
John Humphrys of Glenstal.
He was granted further land at Glenstal by
John Humphrys of Glenstal
in John's will (think 1811).
He
owed £500 to Arthur Henry D'Estere, of Limerick city, gent, attorney at law,
in settlement of which he granted him lands in Glenstal
in
[Deed, 1815].
Patrick Humphrys,
of Glenstal, farmer,
is party to
[Deed, 1817]
about the lands of Glenstal after the death of
John Humphrys of Glenstal.
Patrick Humphrys, of Glenstal, farmer, in
[Deed, 1819]
leases part of Glenstal
to Henry Rose of Limerick.
The plot is:
"that part of Glenstal lately held by James Devane,
together with the meadow held by John Humphrys last year
from said Patrick Humphrys
adjoining the meadow part of said lands so held by said Devane".
He must be
Patrick Humphrys,
listed
at
Glenstal
in [Tithe Survey, 1826],
renting 11 acres from
Matthew Barrington
(future 2nd Baronet).
Patrick and Margaret had issue:

John Humphrys David of Murroe
is probably son or nephew of
John Humphrys of Glenstal,
who apparently set him up with an annuity at marriage.
He might be "John Humphrys (David)",
meaning John Humphrys, son of David Humphrys.

John Humphrys David,
or John Humphry David,
of Murroe, publican, gent.
He mar 1810 to "Miss Hehir".
[Deed, 1810]
is marriage contract
between
John Humphrys of Glenstal, farmer
(probably
John Humphrys of Glenstal)
and "John Humphry David" of Murroe, gent.
The latter is getting married:
"in considerance of your marriage to Miss Hehir".
John Humphrys of Glenstal grants him
an annuity of £50 yearly payable out of the lands of Glenstal and
"Brittis", Co.Limerick.
This must be Brittas, Co.Limerick.
He is executor of will of
John Humphrys of Glenstal
(died probably 1811).
"John Humphrys David, publican, of Murroe" is party to
[Deed, 1817]
about the lands of Glenstal after the death of
John Humphrys of Glenstal.